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Hi,
I'm playing with cli.instant command on telnet.
Can you add a telnet command for adding the url of the instant play at the end of the playlist ?
And send notification to the web browser and …
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Hi,
I know that GATK HaplotypeCaller does not require Indel Realignment as it locally re-assemble the genome. However, Pilon does not seem to have such re-assembling step.
Does the Pilon have inde…
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We observed that MantaSV crashes on some input files that were previously realigned using ABRA2 (https://github.com/mozack/abra2).
For details see error message pasted below. We are using manta ver…
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Once I try to run ABRA2, I get the following error. Would you please look into it? Thanks.
cmd=java -Xmx16G -jar target/abra2-2.19-jar-with-dependencies.jar --in /path_to/filesample_dedupSort.bam -…
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With `DV_CPP_TENSORFLOW_TAG=master`, I believe deepvariant will not build from source. TF master does not build with Bazel=0.15.0:
```
+ bazel test -c opt --local_test_jobs=1 --copt=-march=corei7 …
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I'm getting the below error when running ABRA1. The command is also below. Has anyone seen this before? There is sufficient disk space in the directory so I'm not sure why I'm getting this java error.…
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Spin out of #1378
The GATK3 implementation of this tool generates invalid bam files (because the mate pair info gets all screwed up). If possible to fix that within the tool itself that would be fab…
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Polina, Pablo, Zhongwu and all;
While running the latest release on DRAGEN input alignments, we're hitting an issue apparently in MSI calculations:
```
Exception in thread "main" java.lang.NumberFo…
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Hi,
First of all I would like to thank you for your hard work – I really do appreciate it.
I have called variants using deepvariant v0.7.1 and GATK (4.0.8.0) using the same WGS bam.file and co…
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Hi,
I'm trying to run make_examples with this data:
ftp://ftp-trace.ncbi.nlm.nih.gov/giab/ftp/data/NA12878/NA12878_PacBio_MtSinai/
using chm1.fa as the reference from here:
http://hgdownload.cse.u…